RetrogeneDB ID:

retro_ttru_887

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_508:73940..76076(+)
Located in intron of:ENSTTRG00000009323
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SEC24C
Ensembl ID:ENSTTRG00000012064
Aliases:None
Description:SEC24 family, member C (S. cerevisiae) [Source:HGNC Symbol;Acc:10705]


Retrocopy-Parental alignment summary:






>retro_ttru_887
AGTCAGTCAGCCCCACCTGTGCTGCCATTTGGGGAGCCTCAGCCTGTCCACCCAGGTGTCATCAATCTGGCTGTGGTGGG
CAACCAGGACCCACAGCCCCACCCCCTGTGGAGCCTCCAGTGGCCCAGTGCCAGGCTGTGGGCAAACCCCTCCCCAGGTG
TTTCAAGAGTCCCACCTTCTCCAGGGGCACCTCCAGCCTCAACAACACAGGGCCCTTGTGGCCAGACAGCATATGGCCAG
TTTGGCCAAGGAGAGGTACAGAATGGGCCAAGCTCCACTGTTCAGATGCAGAGGCTCCCTAGGTCTCAGCCATTTGGATT
AGTCCCACTGGCTCCCGTGGTCCGCCAGCCAGCTGTGCTTCAGCCCTATGGCCCTCCCCTGACAAGTACAAAGGTGACTG
CTCAGCTGGCCAGAATGCAGATCAGTGGTGCTGTGGCCCCAGCGCCTCCCGCTCTGGGTCTAGCCTATGGTCCACCAACA
CCACTTGCCTCAACCTCAGGAAGTTTCCCTAACACCGGTCTGCATGGCTCCTACCCTCAGGGCCAGGCCTCTCCCCTTAG
CCAGGCCCAGGGTCATCCTGGGGCCCAGCCTTCCCAGCAATCTGTCCCACCACAGGCCTCCAGCTTCATATCCCAGCTTC
AGGGGGTCCTTGAATGCCTCTGATGACTGGTCCACTCCTGCCTGCACAGAGTTTGGGGGGGCCCCCAGGGAGCGAGCCCA
ACCATGTGTCCTCACCTCCTCAAGCTCTGCCCTCTGGCACCCAAATCACTGGGCTCCCAGGACCACCACCACCTATGCAC
TCCTCCCAGCAGCCAGGCTACCAGTTGCAACAAAATGGTTCCTTTGGACCAGCCCAGGGCCCTCAGCCCAATTATGGAAG
TCCCTACCCAGGAGCAGACACTTTGGGCAGCCAGCCAGGAACACCTCAACTATTGCCTCCTAAGCGCCTGTACCCTGATG
CCATCCCGAGCCCTATTCAGGTTGCTGAGGATGACAGGAACAACCAGGGTTCAGAGCCAATGGTTGCTGGTGTATGGGGC
CAGGTGCCACCCTTAGTCAACACCAACTTCCTGGTGAGAGACCAAGGAAATGCAAGCCCCCGATATATCCGATGCACATC
CTATAATAGCCCTTGCATATCTGAAGTGTCTAGCAGGCTCAGGAGCCCCTGGCAGCTGTCATCAAGTTGCTGGCAAGCCT
GCCCCAAGAGGAGGCTTCACCATATATTGCTGACCACAGGGAACCTGGTCCTTCGTGCTGCAATCGCTGCAAAGCATACA
TGTGCCCCTTCATGCAGTTCATTGAGGGAGGGAGGCGTTTCCAGTGCTGCTTTTGCAGCTGTATCAACGATGTTCCCCCC
CAGTATTTTCAACATCCGGATCGTACTGGCAAATGTGTGGATGCTTATGACCGTCCTGAGCTATCCCTGGGCTCTTACGA
ATTCTTGGCCACTGTAGATTGCTGCAAGAACAGTAAGTTCCCCAGCCCTCCTGCCTTATCTTCATGACTGATGTCTCCTA
CAATGGCATCAGGAGTGGTCTTGTTAGGCTCCTTTGTGAGGAGCTCAAGTCACTGTTAGACTTTCTGCCTAGGGAGGGCA
GAGCAGAAAAGTCAGCAATTCACGTTGGCTTTGTCACCTATAGTAAGGTGCTCTGCTTCTACAATGTGAAGAGCTCATTG
GCCCAGCCACAGATGATGGTTGTATCTGATGTGGGTGACATGTTTGTGCCACTGCTGGATGGCTTCCTGGTCAACGTCAA
TGAGTCTCGGGCAGTCATCACCGGCTTATTGGATCAGATTCCAGAAACATTTGCAGACACAAGGGAGACGGAGACAGTAT
TTGCTCCTGTTATCCAGGCTGGCGTGGAGGCTCTGAAGGCTGCTGAGTGTGCAGGGAAGCTATTTCTGTTCCACACCTCC
CTGCCCATCGCAGAGGTCCCAGGGAAACTGAAGAACAGAGACGACAGGAAGTTGATCAACACAGACAAGGAGGAGACTCT
GTTACAGCCTCAGACAGGTGCCTGTCAGACACTGGCCAAAGAGTGTGTGGCCCAAAGCTGCTGTGTAGACCTCTTCCTCT
TCCCCAGCCAGTATGTGGAAGTGGCCATGCTCTCTGTCATACCCCAGCTAAGTGGT

ORF - retro_ttru_887 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.33 %
Parental protein coverage: 65.17 %
Number of stop codons detected: 1
Number of frameshifts detected 6


Retrocopy - Parental Gene Alignment:

ParentalNQSAPPVPPFGQPQPVYLGH-HQSSYGGQPGPTTAP-TSYGAYNGPVPGYQQTPP-PGVSRAPPSSGAPP
.QSAPPV.PFG.PQPV..G..HQS..GGQPGP.TAP.T..GA..GPVPG..QTPP.PGVSR.PPS.GAPP
RetrocopySQSAPPVLPFGEPQPVHPGV<HQSGCGGQPGP-TAP<TPCGASSGPVPGCGQTPP<PGVSRVPPSPGAPP
ParentalASTAQGPCGQTAYGQFGQGDVQNGPSSTVQMQRLPGYQPFGSAILAPVVSQPAVLQPYGPPPTSAQVTAQ
AST.QGPCGQTAYGQFGQG.VQNGPSSTVQMQRLP..QPFG...LAPVV.QPAVLQPYGPP.TS..VTAQ
RetrocopyASTTQGPCGQTAYGQFGQGEVQNGPSSTVQMQRLPRSQPFGLVPLAPVVRQPAVLQPYGPPLTSTKVTAQ
ParentalLAGMQISGTVAPASPPSGLGYGPPTSLASASGSFPNSGLYGSYPQ-QAPPLGQAQGHPGTQPPQRSV-PL
LA.MQISG.VAPA.P..GL.YGPPT.LAS.SGSFPN.GL.GSYPQ.QA.PL.QAQGHPG.QP.Q.SV.P.
RetrocopyLARMQISGAVAPAPPALGLAYGPPTPLASTSGSFPNTGLHGSYPQGQASPLSQAQGHPGAQPSQQSVPPQ
ParentalQASSFT-PPASGPRMS-MTLPL-PGQSFG-PPVSQPNHVSSPAPQALPPGTQMTGPPGPPLPPMHSSQQP
..S....P...GP.M..MT.PL.P.QS.G.PP.S.PNHVSSP.PQALP.GTQ.TG.PGPP.PPMHSSQQP
RetrocopyASSFIS<PASGGP*MPLMTGPLLPAQSLGGPPGSEPNHVSSP-PQALPSGTQITGLPGPP-PPMHSSQQP
ParentalGYQLQQNGSFGPTRGPQSNYGSPYPGAATFGSQPGPPQPLPPKRLDPDAIPSPIQVIEDDRNNRGSEPFV
GYQLQQNGSFGP..GPQ.NYGSPYPGA.T.GSQPG.PQ.LPPKRL.PDAIPSPIQV.EDDRNN.GSEP.V
RetrocopyGYQLQQNGSFGPAQGPQPNYGSPYPGADTLGSQPGTPQLLPPKRLYPDAIPSPIQVAEDDRNNQGSEPMV
ParentalTGVRGQVPPLVTTNFLVKDQGNASPRYIRCTSYNIPCTSDMAK-QAQVPLAAVIKPLARLPPEEASPYVV
.GV.GQVPPLV.TNFLV.DQGNASPRYIRCTSYN.PC.S.....QAQ.PLAAVIK.LA.LP.EEASPY..
RetrocopyAGVWGQVPPLVNTNFLVRDQGNASPRYIRCTSYNSPCISEVSS<QAQEPLAAVIKLLASLPQEEASPYIA
ParentalDHGESGPLRCNRCKAYMCPFMQFVEGGRRFQCCFCSCINDVPP-YFQHLDHTGKRVDAYDRPELSLGSYE
DH.E.GP..CNRCKAYMCPFMQF.EGGRRFQCCFCSCINDVPP.YFQH.D.TGK.VDAYDRPELSLGSYE
RetrocopyDHREPGPSCCNRCKAYMCPFMQFIEGGRRFQCCFCSCINDVPPQYFQHPDRTGKCVDAYDRPELSLGSYE
ParentalFLATVDYCKNNKFPSPPAF-IFMIDVSYNAIRSGLVRLLCEELKSLLDFLPREGGAEESAIRVGFVTYNK
FLATVD.CKN.KFPSPPA..IFM.DVSYN.IRSGLVRLLCEELKSLLDFLPREG.AE.SAI.VGFVTY.K
RetrocopyFLATVDCCKNSKFPSPPAL<IFMTDVSYNGIRSGLVRLLCEELKSLLDFLPREGRAEKSAIHVGFVTYSK
ParentalVLHFYNVKSSLAQPQMMVVSDVGDMFVPLLDGFLVNVNESQAVITSLLDQIPEMFADTRETETVFAPVIQ
VL.FYNVKSSLAQPQMMVVSDVGDMFVPLLDGFLVNVNES.AVIT.LLDQIPE.FADTRETETVFAPVIQ
RetrocopyVLCFYNVKSSLAQPQMMVVSDVGDMFVPLLDGFLVNVNESRAVITGLLDQIPETFADTRETETVFAPVIQ
ParentalAGMEALKAAECAGKLFLFHTSLPIAEAPGKLKNRDDRKLINTDKEKTLFQPQTGAYQTLAKECVAQGCCV
AG.EALKAAECAGKLFLFHTSLPIAE.PGKLKNRDDRKLINTDKE.TL.QPQTGA.QTLAKECVAQ.CCV
RetrocopyAGVEALKAAECAGKLFLFHTSLPIAEVPGKLKNRDDRKLINTDKEETLLQPQTGACQTLAKECVAQSCCV
ParentalDLFLFPNQYVDVATLSVVPQLTG
DLFLFP.QYV.VA.LSV.PQL.G
RetrocopyDLFLFPSQYVEVAMLSVIPQLSG

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_887 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_887 was not experimentally validated.

Retrocopy orthology:
Tursiops truncatus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.
Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Tursiops truncatus ENSTTRG00000012064 1 retrocopy
retro_ttru_887 ,


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